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. 2018 Mar 27;7:e33399. doi: 10.7554/eLife.33399

Figure 1. Proteins in nuclear auxin pathway; mechanism and origin of the domains.

(A, B) Scheme of NAP in land plants. In the absence of auxin, Aux/IAA inhibit ARF via their PB1 domains, and by recruiting the TPL co-repressor. Auxin stabilizes the interaction between Aux/IAA and TIR1/AFB, followed by proteasome-mediated degradation of Aux/IAA. (C) Domain structure of NAP components in land plants and presence of each domain in algae, as recovered in transcriptomes. (Sub-)domains are indicated by colors, that match those in (B). ^: basal to all B3-type transcription factors in land plants, *: difficult to assign to ARF or Aux/IAA family; #: forming basal clade to both TIR1/AFB and COI1 in land plants.

Figure 1.

Figure 1—figure supplement 1. The work flow of phylogenetic tree construction.

Figure 1—figure supplement 1.

Figure 1—figure supplement 2. Phylogenetic tree of ARF and RAV proteins.

Figure 1—figure supplement 2.

Label color shows the taxonomic group of each protein as indicated in the box above. Numbers along with the branches indicate branch length. Orange circles indicate the bootstraps higher than 75. Colored boxes connected with gray bar shows the domain structure of each protein. Red: B3, green: DD2 + AD, blue: PB1, gray: AP2. The complete tree can be found at http://itol.embl.de/shared/dolfweijers (interactive Tree of Life; iTOL).

Figure 1—figure supplement 3. DNA-binding domain of RAV proteins.

Figure 1—figure supplement 3.

(A) Domain structure of RAV proteins in land plants. (B) Homology models for B3 domain of A. thaliana ARF1 (gray) and K. nitens proto-RAV are merged. Four serine residues which are critical for DNA binding of ARF is indicated as stick model. (C) Multiple alignment for B3 domain of ARFs and (proto-)RAVs. Numbering is based on the ARF1 protein of A. thaliana. Red and orange triangles indicate the residues which are important for DNA interaction in ARF proteins.